RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3664
(504 letters)
>gnl|CDD|238904 cd01923, cyclophilin_RING, cyclophilin_RING: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a modified RING finger domain. This group
includes the nuclear proteins, Human hCyP-60 and
Caenorhabditis elegans MOG-6 which, compared to the
archetypal cyclophilin Human cyclophilin A exhibit
reduced peptidylprolyl cis- trans isomerase activity and
lack a residue important for cyclophilin binding. Human
hCyP-60 has been shown to physically interact with the
proteinase inhibitor peptide eglin c and; C. elegans
MOG-6 to physically interact with MEP-1, a nuclear zinc
finger protein. MOG-6 has been shown to function in
germline sex determination.
Length = 159
Score = 119 bits (301), Expect = 6e-32
Identities = 47/60 (78%), Positives = 53/60 (88%)
Query: 445 KPNYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
KPN +H GRGVLSMANSGPNTN SQFFITYRSC HLDGKHTVFG++VGG++TL A+E V
Sbjct: 75 KPNLSHDGRGVLSMANSGPNTNGSQFFITYRSCKHLDGKHTVFGRVVGGLETLEAMENVP 134
>gnl|CDD|238194 cd00317, cyclophilin, cyclophilin: cyclophilin-type peptidylprolyl
cis- trans isomerases. This family contains eukaryotic,
bacterial and archeal proteins which exhibit a
peptidylprolyl cis- trans isomerases activity (PPIase,
Rotamase) and in addition bind the immunosuppressive
drug cyclosporin (CsA). Immunosuppression in
vertebrates is believed to be the result of the
cyclophilin A-cyclosporin protein drug complex binding
to and inhibiting the protein-phosphatase calcineurin.
PPIase is an enzyme which accelerates protein folding by
catalyzing the cis-trans isomerization of the peptide
bonds preceding proline residues. Cyclophilins are a
diverse family in terms of function and have been
implicated in protein folding processes which depend on
catalytic /chaperone-like activities. This group
contains human cyclophilin 40, a co-chaperone of the
hsp90 chaperone system; human cyclophilin A, a
chaperone in the HIV-1 infectious process and; human
cyclophilin H, a component of the U4/U6 snRNP, whose
isomerization or chaperoning activities may play a role
in RNA splicing. .
Length = 146
Score = 102 bits (257), Expect = 6e-26
Identities = 37/65 (56%), Positives = 42/65 (64%)
Query: 440 LKKNTKPNYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSA 499
P H RG LSMAN+GPNTN SQFFIT HLDGKHTVFGK+V GMD +
Sbjct: 67 FPDENFPLKYHHRRGTLSMANAGPNTNGSQFFITTAPTPHLDGKHTVFGKVVEGMDVVDK 126
Query: 500 IEKVE 504
IE+ +
Sbjct: 127 IERGD 131
>gnl|CDD|215759 pfam00160, Pro_isomerase, Cyclophilin type peptidyl-prolyl
cis-trans isomerase/CLD. The peptidyl-prolyl cis-trans
isomerases, also known as cyclophilins, share this
domain of about 109 amino acids. Cyclophilins have been
found in all organisms studied so far and catalyze
peptidyl-prolyl isomerisation during which the peptide
bond preceding proline (the peptidyl-prolyl bond) is
stabilised in the cis conformation. Mammalian
cyclophilin A (CypA) is a major cellular target for the
immunosuppressive drug cyclosporin A (CsA). Other roles
for cyclophilins may include chaperone and cell
signalling function.
Length = 144
Score = 97.7 bits (244), Expect = 4e-24
Identities = 34/59 (57%), Positives = 39/59 (66%), Gaps = 1/59 (1%)
Query: 446 PNYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
H RG LSMA SGPN+ SQFFIT HLDG +TVFG++V GMD + IEKVE
Sbjct: 72 SKLKHK-RGTLSMARSGPNSAGSQFFITLGDAPHLDGGYTVFGRVVEGMDVVEKIEKVE 129
>gnl|CDD|238907 cd01926, cyclophilin_ABH_like, cyclophilin_ABH_like: Cyclophilin
A, B and H-like cyclophilin-type peptidylprolyl cis-
trans isomerase (PPIase) domain. This family represents
the archetypal cystolic cyclophilin similar to human
cyclophilins A, B and H. PPIase is an enzyme which
accelerates protein folding by catalyzing the cis-trans
isomerization of the peptide bonds preceding proline
residues. These enzymes have been implicated in protein
folding processes which depend on catalytic
/chaperone-like activities. As cyclophilins, Human
hCyP-A, human cyclophilin-B (hCyP-19), S. cerevisiae
Cpr1 and C. elegans Cyp-3, are inhibited by the
immunosuppressive drug cyclopsporin A (CsA). CsA binds
to the PPIase active site. Cyp-3. S. cerevisiae Cpr1
interacts with the Rpd3 - Sin3 complex and in addition
is a component of the Set3 complex. S. cerevisiae Cpr1
has also been shown to have a role in Zpr1p nuclear
transport. Human cyclophilin H associates with the
[U4/U6.U5] tri-snRNP particles of the splicesome.
Length = 164
Score = 97.7 bits (244), Expect = 7e-24
Identities = 36/54 (66%), Positives = 40/54 (74%)
Query: 450 HTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKV 503
HTG G+LSMAN+GPNTN SQFFIT LDGKH VFGK+V GMD + IE V
Sbjct: 94 HTGPGLLSMANAGPNTNGSQFFITTVKTPWLDGKHVVFGKVVEGMDVVKKIENV 147
>gnl|CDD|238909 cd01928, Cyclophilin_PPIL3_like, Cyclophilin_PPIL3_like. Proteins
similar to Human cyclophilin-like peptidylprolyl cis-
trans isomerase (PPIL3). Members of this family lack a
key residue important for cyclosporin binding: the
tryptophan residue corresponding to W121 in human
hCyP-18a; most members have a histidine at this
position. The exact function of the protein is not
known.
Length = 153
Score = 94.4 bits (235), Expect = 7e-23
Identities = 35/55 (63%), Positives = 43/55 (78%)
Query: 450 HTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
H RGV+SMAN+GPNTN SQFFITY HLDGK+TVFGK++ G +TL +EK+
Sbjct: 81 HDSRGVVSMANNGPNTNGSQFFITYAKQPHLDGKYTVFGKVIDGFETLDTLEKLP 135
>gnl|CDD|223725 COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) -
cyclophilin family [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 92.3 bits (230), Expect = 4e-22
Identities = 31/63 (49%), Positives = 39/63 (61%), Gaps = 1/63 (1%)
Query: 443 NTKPNYTHTGRGVLSMANSG-PNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIE 501
N N RG LSMA +G PN+N SQFFIT LDGK+TVFG++V GMD + I+
Sbjct: 72 NFALNGDRHKRGTLSMARAGDPNSNGSQFFITVVDNPFLDGKYTVFGQVVEGMDVVDKIK 131
Query: 502 KVE 504
+
Sbjct: 132 NGD 134
>gnl|CDD|240249 PTZ00060, PTZ00060, cyclophilin; Provisional.
Length = 183
Score = 87.2 bits (216), Expect = 5e-20
Identities = 33/57 (57%), Positives = 40/57 (70%)
Query: 447 NYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKV 503
H G+LSMAN+GPNTN SQFFIT C LDGKH VFGK++ GM+ + A+EK
Sbjct: 107 KLKHDQPGLLSMANAGPNTNGSQFFITTVPCPWLDGKHVVFGKVIEGMEVVRAMEKE 163
>gnl|CDD|238908 cd01927, cyclophilin_WD40, cyclophilin_WD40: cyclophilin-type
peptidylprolyl cis- trans isomerases (cyclophilins)
having a WD40 domain. This group consists of several
hypothetical and putative eukaryotic and bacterial
proteins which have a cyclophilin domain and a WD40
domain. Function of the protein is not known.
Length = 148
Score = 82.5 bits (204), Expect = 9e-19
Identities = 33/59 (55%), Positives = 40/59 (67%)
Query: 446 PNYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
P+ H LSMAN+GPNTN SQFFIT + LD KHTVFG++V GMD + IE V+
Sbjct: 74 PSLKHDRPYTLSMANAGPNTNGSQFFITTVATPWLDNKHTVFGRVVKGMDVVQRIENVK 132
>gnl|CDD|238903 cd01922, cyclophilin_SpCYP2_like, cyclophilin_SpCYP2_like:
cyclophilin 2-like peptidylprolyl cis- trans isomerase
(PPIase) domain similar to Schizosaccharomyces pombe
cyp-2. These proteins bind their respective SNW
chromatin binding protein in autologous systems, in a
CsA independent manner indicating interaction with a
surface outside the PPIase active site. SNW proteins
play a basic and broad range role in signaling.
Length = 146
Score = 78.0 bits (192), Expect = 4e-17
Identities = 31/49 (63%), Positives = 36/49 (73%)
Query: 446 PNYTHTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGM 494
P HTG G+LSMAN+GPNTN SQFFIT LDGKHT+FG++ GM
Sbjct: 74 PELKHTGAGILSMANAGPNTNGSQFFITLAPTPWLDGKHTIFGRVSKGM 122
>gnl|CDD|178694 PLN03149, PLN03149, peptidyl-prolyl isomerase H (cyclophilin H);
Provisional.
Length = 186
Score = 78.0 bits (192), Expect = 1e-16
Identities = 33/55 (60%), Positives = 40/55 (72%), Gaps = 2/55 (3%)
Query: 450 HTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
HTG G+LSMANSGPNTN QFFIT C+ LD KH VFG+++G D L + K+E
Sbjct: 112 HTGPGLLSMANSGPNTNGCQFFITCAKCDWLDNKHVVFGRVLG--DGLLVVRKIE 164
>gnl|CDD|238902 cd01921, cyclophilin_RRM, cyclophilin_RRM: cyclophilin-type
peptidylprolyl cis- trans isomerase domain occuring with
a C-terminal RNA recognition motif domain (RRM). This
subfamily of the cyclophilin domain family contains a
number of eukaryotic cyclophilins having the RRM domain
including the nuclear proteins: human hCyP-57,
Arabidopsis thaliana AtCYP59, Caenorhabditis elegans
CeCyP-44 and Paramecium tetrurelia Kin241. The Kin241
protein has been shown to have a role in cell
morphogenesis.
Length = 166
Score = 64.7 bits (158), Expect = 2e-12
Identities = 28/57 (49%), Positives = 38/57 (66%), Gaps = 1/57 (1%)
Query: 445 KPNYTHTGRGVLSMANSGPNTNTSQFFITYR-SCNHLDGKHTVFGKMVGGMDTLSAI 500
P H+ +G +SM N+G N N SQF+IT + ++LDGKHTVFG++V G D L I
Sbjct: 80 LPLLKHSKKGTVSMVNAGDNLNGSQFYITLGENLDYLDGKHTVFGQVVEGFDVLEKI 136
>gnl|CDD|238906 cd01925, cyclophilin_CeCYP16-like, cyclophilin_CeCYP16-like:
cyclophilin-type peptidylprolyl cis- trans isomerase)
(PPIase) domain similar to Caenorhabditis elegans
cyclophilin 16. C. elegans CeCYP-16, compared to the
archetypal cyclophilin Human cyclophilin A has, a
reduced peptidylprolyl cis- trans isomerase activity, is
cyclosporin insensitive and shows an altered substrate
preference favoring, hydrophobic, acidic or amide amino
acids. Most members of this subfamily have a glutamate
residue in the active site at the position equivalent to
a tryptophan (W121 in Human cyclophilin A), which has
been shown to be important for cyclophilin binding.
Length = 171
Score = 63.1 bits (154), Expect = 1e-11
Identities = 22/45 (48%), Positives = 32/45 (71%), Gaps = 2/45 (4%)
Query: 453 RGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTL 497
RG++ MAN+G ++N SQFF T + L+ KHT+FGK+ G DT+
Sbjct: 89 RGLVGMANAGDDSNGSQFFFTLDKADELNNKHTLFGKVTG--DTI 131
>gnl|CDD|140248 PTZ00221, PTZ00221, cyclophilin; Provisional.
Length = 249
Score = 50.3 bits (120), Expect = 6e-07
Identities = 27/55 (49%), Positives = 34/55 (61%), Gaps = 3/55 (5%)
Query: 450 HTGRGVLSMANSGPNTNTSQFFITYRSCNHLDGKHTVFGKMVGGMDTLSAIEKVE 504
HT RG+L+M + GP+T+ S F IT LD K VFGK V D LS +EK+E
Sbjct: 146 HTERGLLTMISEGPHTSGSVFGITLGPSPSLDFKQVVFGKAV---DDLSLLEKLE 197
>gnl|CDD|238901 cd01920, cyclophilin_EcCYP_like, cyclophilin_EcCYP_like:
cyclophilin-type A-like peptidylprolyl cis- trans
isomerase (PPIase) domain similar to the cytosolic E.
coli cyclophilin A and Streptomyces antibioticus
SanCyp18. Compared to the archetypal cyclophilin Human
cyclophilin A, these have reduced affinity for
cyclosporin A. E. coli cyclophilin A has a similar
peptidylprolyl cis- trans isomerase activity to the
human cyclophilin A. Most members of this subfamily
contain a phenylalanine residue at the position
equivalent to Human cyclophilin W121, where a tyrptophan
has been shown to be important for cyclophilin binding.
Length = 155
Score = 47.4 bits (113), Expect = 2e-06
Identities = 26/69 (37%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 442 KNTKPNYTHTGRGVLSMANSG-PNTNTSQFFITYRSCNHLD-----GKHTVFGKMVGGMD 495
KN N RG ++MA + P++ TSQFFI + LD +TVFG++ GMD
Sbjct: 67 KNEAGNGLSNTRGTIAMARTNAPDSATSQFFINLKDNASLDYQNEQWGYTVFGEVTEGMD 126
Query: 496 TLSAIEKVE 504
+ I VE
Sbjct: 127 VVDKIAGVE 135
>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain. Modified RING
finger domain, without the full complement of
Zn2+-binding ligands. Probable involvement in
E2-dependent ubiquitination.
Length = 63
Score = 43.8 bits (104), Expect = 5e-06
Identities = 19/60 (31%), Positives = 31/60 (51%)
Query: 42 CCVSLQPYEHPYCDKDGNIFELEALMGYLKQYKHNPVTGKPLDVKSLIKLNFHKNAKGEY 101
C +SL+ + P G +E A+ +L + +PVTG+PL + LI K+A E+
Sbjct: 4 CPISLEVMKDPVILPSGQTYERSAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQEW 63
>gnl|CDD|238905 cd01924, cyclophilin_TLP40_like, cyclophilin_TLP40_like:
cyclophilin-type peptidylprolyl cis- trans isomerases
(cyclophilins) similar ot the Spinach thylakoid lumen
protein TLP40. Compared to the archetypal cyclophilin
Human cyclophilin A, these proteins have similar
peptidylprolyl cis- trans isomerase activity and reduced
affinity for cyclosporin A. Spinach TLP40 has been shown
to have a dual function as a folding catalyst and
regulator of dephosphorylation.
Length = 176
Score = 41.3 bits (97), Expect = 3e-04
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 9/57 (15%)
Query: 454 GVLSMANS--GPNTNTSQFFITYRSC-------NHLDGKHTVFGKMVGGMDTLSAIE 501
G ++MA + PN+ +SQFF + N LDG++ VFG + G+D L ++
Sbjct: 107 GAIAMARTEFDPNSASSQFFFLLKDNELTPSRNNVLDGRYAVFGYVTDGLDILRELK 163
>gnl|CDD|182824 PRK10903, PRK10903, peptidyl-prolyl cis-trans isomerase A (rotamase
A); Provisional.
Length = 190
Score = 40.6 bits (95), Expect = 7e-04
Identities = 29/80 (36%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 431 QTHSMQPTILKKNTKPNYTHTGRGVLSMA-NSGPNTNTSQFFITYRSCNHLD-GK----H 484
Q P I KN N RG ++MA + ++ TSQFFI LD G+ +
Sbjct: 89 QQKKPNPPI--KNEADNGLRNTRGTIAMARTADKDSATSQFFINVADNAFLDHGQRDFGY 146
Query: 485 TVFGKMVGGMDTLSAIEKVE 504
VFGK+V GMD I +V
Sbjct: 147 AVFGKVVKGMDVADKISQVP 166
>gnl|CDD|192832 pfam11789, zf-Nse, Zinc-finger of the MIZ type in Nse subunit.
Nse1 and Nse2 are novel non-SMC subunits of the fission
yeast Smc5-6 DNA repair complex. This family is the
zinc-finger domain similar to the MIZ type of
zinc-finger.
Length = 57
Score = 34.5 bits (80), Expect = 0.008
Identities = 15/42 (35%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 42 CCVSLQPYEHPYCDKD-GNIFELEALMGYLKQYKHN--PVTG 80
C ++LQP+E P K ++FE +A++ L++ K PV G
Sbjct: 14 CPLTLQPFEEPVTSKKCNHVFEKDAILSMLRRNKTVKCPVAG 55
>gnl|CDD|182734 PRK10791, PRK10791, peptidyl-prolyl cis-trans isomerase B (rotamase
B); Provisional.
Length = 164
Score = 36.0 bits (83), Expect = 0.019
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 442 KNTKPNYTHTGRGVLSMANSG-PNTNTSQFFIT--------YRSCNHLDGKHTVFGKMVG 492
KN N RG L+MA + P++ T+QFFI + + + VF ++V
Sbjct: 69 KNEANNGLKNTRGTLAMARTQAPHSATAQFFINVVDNDFLNFSGESLQGWGYCVFAEVVE 128
Query: 493 GMDTLSAIEKV 503
GMD + I+ V
Sbjct: 129 GMDVVDKIKGV 139
>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2. It is vital for
effective cell-replication that replication is not
stalled at any point by, for instance, damaged bases.
Rtf2 stabilizes the replication fork stalled at the
site-specific replication barrier RTS1 by preventing
replication restart until completion of DNA synthesis by
a converging replication fork initiated at a flanking
origin. The RTS1 element terminates replication forks
that are moving in the cen2-distal direction while
allowing forks moving in the cen2-proximal direction to
pass through the region. Rtf2 contains a C2HC2 motif
related to the C3HC4 RING-finger motif, and would appear
to fold up, creating a RING finger-like structure but
forming only one functional Zn2+ ion-binding site.
Length = 254
Score = 35.0 bits (81), Expect = 0.061
Identities = 29/142 (20%), Positives = 60/142 (42%), Gaps = 29/142 (20%)
Query: 41 HCCVSLQPYEHP-YCDKDGNIFELEALMGYL--------KQYKHNPVTGKPLDVKSLIKL 91
C +S +P + P D+ GN++ +A++ L K + H + G +K +++L
Sbjct: 36 TCALSQEPLKKPIVADRLGNLYNKDAVLEALLDKSKSLPKAFSH--IKG----LKDVVEL 89
Query: 92 NFHKNA----------KGEYHCPVLYKVFSKHSHLVAIETTGNVYSFEAVDQLNIKTKSF 141
N + + CPV + VA+ G V+S +A+ ++ KS
Sbjct: 90 KLTPNPAFEGSKDDNKEAPFICPVTGLEMNGKYKFVALWPCGCVFSEKALKEV----KSK 145
Query: 142 KDLLTDEPFQRKNIITLQDPNE 163
+ +P+ ++++ L E
Sbjct: 146 VCPVCGKPYSEEDVVPLNPTEE 167
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 33.2 bits (76), Expect = 0.35
Identities = 22/107 (20%), Positives = 43/107 (40%), Gaps = 6/107 (5%)
Query: 154 NIITLQDPNELSKFNLTNFHHLKNNLRVLTDEEKEQLKDPESRLKTVTNETRDILDTFKR 213
NI D N+L+ LT + + L+ +++++L LK + +D
Sbjct: 334 NIARNLDDNDLTLLALTKLYEEVKSNTDLSGDKRQEL------LKEYNKKLQDYTKKLGE 387
Query: 214 EYKPTEAKVEEKVKADAFNAAHYSQEEKEQLKDPESRLKTVTNETRD 260
T+A E + KA E+K++ + E + K +E +
Sbjct: 388 VKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 32.8 bits (75), Expect = 0.60
Identities = 35/238 (14%), Positives = 87/238 (36%), Gaps = 34/238 (14%)
Query: 176 KNNLRVLTDEEKEQLKDPESRLKTVTNETRDI---LDTFKREYKPTEAKVEEKVKADAFN 232
+ L + +++ + E ++ + E ++ LD + E + E ++EE
Sbjct: 809 LDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEE-------- 860
Query: 233 AAHYSQEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFNAAHYSQ 292
+EE E+L+ + L+ E + + + E + E+++ E + +
Sbjct: 861 ----LKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEE 916
Query: 293 GEVSASFTSTAMVPVTENICAVVEEDLVRYSRVVKKEEKEQLKDPESRLKTVTNETRDIL 352
E + + E + E+ L + +E+++ L V +
Sbjct: 917 LEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEIE----ALGPVNLRAIEEY 972
Query: 353 DTFKREYKPTEAKVEEKVKADAFNAAHYSQVWLVSSRKLRDRIQKVDSKLSPMKHETF 410
+ + Y+ +++ E+ +A KL + I+++D + ETF
Sbjct: 973 EEVEERYEELKSQREDLEEA---------------KEKLLEVIEELDKEKRERFKETF 1015
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 32.0 bits (73), Expect = 1.1
Identities = 45/282 (15%), Positives = 99/282 (35%), Gaps = 60/282 (21%)
Query: 172 FHHLKNNLR-----VLTDEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKV 226
+ LK LR +L E+L++ L+ E + L+ E + E K+EE
Sbjct: 215 YKELKAELRELELALLVLR-LEELREELEELQEELKEAEEELEELTAELQELEEKLEELR 273
Query: 227 KADAFNAAHYSQEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFN 286
E +E++++ + L + NE L+ K+ + A +E +++
Sbjct: 274 LEV--------SELEEEIEELQKELYALANEISR-LEQQKQILRERLANLERQLEE---- 320
Query: 287 AAHYSQGEVSASFTSTAMVPVTENICAVVEEDLVRY--SRVVKKEEKEQLKDPESRLKTV 344
+E L EE +L++ LK
Sbjct: 321 ----------------------------LEAQLEELESKLDELAEELAELEEKLEELKEE 352
Query: 345 TNETRDILDTFKREYKPTEAKVEEK-VKADAFN---AAHYSQVWLVSSRKLRDRIQKVDS 400
L+ + E + E+++EE + + A Q+ L + I+++++
Sbjct: 353 LESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQI-----ASLNNEIERLEA 407
Query: 401 KLSPMKHETFWTHSRENTNQLKPKLKRRSKQTHSMQPTILKK 442
+L ++ ++ +L KL+ + + L++
Sbjct: 408 RLERLEDRR--ERLQQEIEELLKKLEEAELKELQAELEELEE 447
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 31.1 bits (70), Expect = 1.3
Identities = 27/174 (15%), Positives = 67/174 (38%), Gaps = 14/174 (8%)
Query: 190 LKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFNAAHYSQEEKEQLKDPES 249
+D E + N RD+ D +RE + +AK +++K + + + +++ +
Sbjct: 187 REDNEKGV----NFRRDMTDLKERESQ-EDAKRAQQLKEELDKKQIDADKAQQKADFAQD 241
Query: 250 RLKTVTNETRDILDTFKREYKP---TEAKVEEKVKADAFNAAHYSQGEVSASFTSTAMVP 306
+E R K KP + K +++V + +Q E+ + A+
Sbjct: 242 NADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKN-DEEALKA 300
Query: 307 VTENICAVVEEDLVRYSRVVKKEEKEQLKDPESRLKTVTNETRDILDTFKREYK 360
DL + S+ +KE +++ + + + + V + + + +
Sbjct: 301 KDHK-----AFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVEAQPT 349
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 31.1 bits (70), Expect = 1.3
Identities = 43/194 (22%), Positives = 76/194 (39%), Gaps = 18/194 (9%)
Query: 185 EEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFNAAHYSQEEKEQL 244
++ +++ +S K + + + E KP +A +E++K Q EKE+L
Sbjct: 62 QQYGRIQSQQSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLK----------QLEKERL 111
Query: 245 KDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFNAAHYSQGEVSASFTSTAM 304
K E + + E + L+ ++E + +A E+K KA+A A +A + A
Sbjct: 112 KAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAK---AAAEAAKLKAAAE 168
Query: 305 VPVTENICAVVEEDLVRYSRVVKKEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEA 364
A E+ K E K E+ K + + + + K EA
Sbjct: 169 AKKKAEEAAKAAEEAKA-----KAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEA 223
Query: 365 KVEEKVKADAFNAA 378
EEK A+ AA
Sbjct: 224 AAEEKAAAEKKKAA 237
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 30.9 bits (71), Expect = 2.0
Identities = 26/115 (22%), Positives = 44/115 (38%), Gaps = 10/115 (8%)
Query: 180 RVLTDEEKEQLKDPE-----SRLKTVTNETRDILDTFK---REYKPTEAKVEEKVKADAF 231
LT+EE E L + E ++ + E ++IL + RE + +++ +V A
Sbjct: 162 EPLTEEEFEALPEEEREELEEKIDELEEELQEILRQLRELEREAREKLRELDREVALFA- 220
Query: 232 NAAHYSQEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFN 286
E KE+ D L + DIL+ + EA+ D F
Sbjct: 221 -VGPLLDELKEKYADLPKVLAYLDAVQEDILENLDLFLEEDEAEAAASGAEDQFR 274
>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation
motif. This zinc-finger is the dimerisation motif for
LisH proteins, and is also a typical RING-type of plant
ubiquitin ligases.
Length = 55
Score = 27.7 bits (62), Expect = 2.0
Identities = 11/41 (26%), Positives = 21/41 (51%)
Query: 103 CPVLYKVFSKHSHLVAIETTGNVYSFEAVDQLNIKTKSFKD 143
CP+ +V + + + G+VYS +A+++L FK
Sbjct: 13 CPISKEVMTDEENPPVMLPCGHVYSRKALEKLAKNGGKFKC 53
>gnl|CDD|216381 pfam01237, Oxysterol_BP, Oxysterol-binding protein.
Length = 335
Score = 29.5 bits (67), Expect = 4.0
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 161 PNELSKFNLTNFHHLKNNLRVLTDEEKEQLKDPESRLKTVT 201
PN + T F L LT E KE+L +SRL+
Sbjct: 235 PNSEKVYGFTKFAI---PLNELTPELKEELPPTDSRLRPDQ 272
>gnl|CDD|238681 cd01385, MYSc_type_IX, Myosin motor domain, type IX myosins. Myosin
IX is a processive single-headed motor, which might play
a role in signalling. This catalytic (head) domain has
ATPase activity and belongs to the larger group of
P-loop NTPases. Myosins are actin-dependent molecular
motors that play important roles in muscle contraction,
cell motility, and organelle transport. The head domain
is a molecular motor, which utilizes ATP hydrolysis to
generate directed movement toward the plus end along
actin filaments. A cyclical interaction between myosin
and actin provides the driving force. Rates of ATP
hydrolysis and consequently the speed of movement along
actin filaments vary widely, from about 0.04 micrometer
per second for myosin I to 4.5 micrometer per second for
myosin II in skeletal muscle. Myosin II moves in
discrete steps about 5-10 nm long and generates 1-5
piconewtons of force. Upon ATP binding, the myosin head
dissociates from an actin filament. ATP hydrolysis
causes the head to pivot and associate with a new actin
subunit. The release of Pi causes the head to pivot and
move the filament (power stroke). Release of ADP
completes the cycle.
Length = 692
Score = 29.5 bits (66), Expect = 4.7
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 7/94 (7%)
Query: 190 LKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFNAAHYSQEEKEQLKDPES 249
L D ES T++T +L F +++K + +VK AF HY+ + K Q+KD
Sbjct: 455 LLDEESNFPHATSQT--LLAKFNQQHKDNKYYEGPQVKEPAFIIQHYAGKVKYQIKD--F 510
Query: 250 RLKTVTNETRDILDTFKREYKPTEAKVEEKVKAD 283
R K + +DI+ K + V E + D
Sbjct: 511 REKNMDLMRQDIVALLKGS---DSSYVRELIGMD 541
>gnl|CDD|226190 COG3664, XynB, Beta-xylosidase [Carbohydrate transport and
metabolism].
Length = 428
Score = 29.0 bits (65), Expect = 5.9
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 5 QHQSDKLYLTYTEWTTLYGGKKAGPEKSDFKR 36
QH S L L T W TL G ++ P + R
Sbjct: 202 QHHSLGLPLLLTNWNTLTGPRE--PTNGSYVR 231
>gnl|CDD|217915 pfam04130, Spc97_Spc98, Spc97 / Spc98 family. The spindle pole
body (SPB) functions as the microtubule-organising
centre in yeast. Members of this family are spindle pole
body (SBP) components such as Spc97 and Spc98 that form
a complex with gamma-tubulin. This family of proteins
includes the grip motif 1 and grip moti 2.
Length = 528
Score = 29.0 bits (65), Expect = 6.3
Identities = 15/61 (24%), Positives = 28/61 (45%)
Query: 296 SASFTSTAMVPVTENICAVVEEDLVRYSRVVKKEEKEQLKDPESRLKTVTNETRDILDTF 355
S S +S+ PV + + A + E L Y ++V + E E L + L + E + +
Sbjct: 60 SISSSSSLYGPVLQALAAALREILNEYLQLVAQLESELLSNGTLTLLQLLAELQPAILLL 119
Query: 356 K 356
+
Sbjct: 120 R 120
>gnl|CDD|165574 PHA03330, PHA03330, putative primase; Provisional.
Length = 771
Score = 28.9 bits (64), Expect = 6.8
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 8/32 (25%)
Query: 41 HCCVSLQPYEH------PYCDK--DGNIFELE 64
HC + + PY P CDK +G F L
Sbjct: 572 HCALDVGPYGARKSLRLPLCDKPHEGGRFALH 603
>gnl|CDD|215279 PLN02503, PLN02503, fatty acyl-CoA reductase 2.
Length = 605
Score = 29.1 bits (65), Expect = 7.2
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 270 KPTEAKVE----EKVKADAFNAAHYSQGEVSASFTSTAMVPVTENICAV---VEEDL 319
K EA +E E + A+ F + G+ SF + +VPV N+C +E DL
Sbjct: 156 KDKEAAIERLKNEVIDAELFKCLQETHGKSYQSFMLSKLVPVVGNVCESNLGLEPDL 212
>gnl|CDD|233273 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This
model describes the bacterial oxaloacetate decarboxylase
alpha subunit and its equivalents in archaea. The
oxaloacetate decarboxylase Na+ pump is the paradigm of
the family of Na+ transport decarboxylases that present
in bacteria and archaea. It a multi subunit enzyme
consisting of a peripheral alpha-subunit and integral
membrane subunits beta and gamma. The energy released by
the decarboxylation reaction of oxaloacetate is coupled
to Na+ ion pumping across the membrane [Transport and
binding proteins, Cations and iron carrying compounds,
Energy metabolism, Other].
Length = 582
Score = 28.6 bits (64), Expect = 9.0
Identities = 30/128 (23%), Positives = 45/128 (35%), Gaps = 26/128 (20%)
Query: 196 RLKTVTNETRDILDTFKREYKPTEAKVEEKVKADAFN---------AAHYSQEEKEQLKD 246
R KT+T ET+ L K EY T A + +++ A + E ++L+
Sbjct: 352 RYKTITKETKGYL---KGEYGRTPAPINAELQRKILGDEKPIVDCRPADLLEPELDKLRA 408
Query: 247 PESRLKTVTNETRDIL----------DTFKREYKPT--EAKVEEKVKAD--AFNAAHYSQ 292
N D+L + + P E K EEKV A Y +
Sbjct: 409 EVREAGAEKNSIEDVLTYALFPQVGLKFLENRHNPAAFEPKPEEKVIEQEHAQVVGKYEE 468
Query: 293 GEVSASFT 300
S S+T
Sbjct: 469 THASGSYT 476
>gnl|CDD|183863 PRK13107, PRK13107, preprotein translocase subunit SecA; Reviewed.
Length = 908
Score = 28.8 bits (64), Expect = 9.1
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 169 LTNFHHLKNNLRVLTDEEKEQLKDPESRLKTVTNETRDILDTFKREYKPTEAKVEEKVKA 228
L F + N+ R + ++ +L D ES T+ N D+++ +Y P ++ VEE
Sbjct: 645 LLEFDDVANDQRQVVYAQRNELMDAESIEDTIKNIQDDVINGVIDQYIPPQS-VEELWDV 703
Query: 229 DAFNAAHYSQEEKEQLK-----DPESRLKTVTNETRDILDTFKREYKPTEAKVEEKV 280
QE +L D E L T R I+ ++ YK E V +V
Sbjct: 704 PGLE-QRLHQEFMLKLPIQEWLDKEDDLHEETLRER-IVTSWSDAYKAKEEMVGAQV 758
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.129 0.368
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,861,025
Number of extensions: 2382147
Number of successful extensions: 2170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2119
Number of HSP's successfully gapped: 110
Length of query: 504
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 403
Effective length of database: 6,457,848
Effective search space: 2602512744
Effective search space used: 2602512744
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 61 (27.2 bits)